Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 31 of 136
Found at i:10019352 original size:78 final size:79
Alignment explanation
Indices: 10019255--10019411 Score: 291
Period size: 78 Copynumber: 2.0 Consensus size: 79
10019245 TTAAATAAAA
10019255 TTAATTAATAATTAATTAATCTTAGATATAGGTTTAATTC-AATTTCAACTCAATTATATAATTC
1 TTAATTAATAATTAATTAATCTTAGATATAGGTTTAATTCAAATTTC-ACTCAATTATATAATTC
10019319 AAATAAATAAAATTT
65 AAATAAATAAAATTT
10019334 TTAATTAAT-ATTAATTAATCTTAGATATAGGTTTAATTCAAATTTCACTCAATTATATAATTCA
1 TTAATTAATAATTAATTAATCTTAGATATAGGTTTAATTCAAATTTCACTCAATTATATAATTCA
10019398 AATAAATAAAATTT
66 AATAAATAAAATTT
10019412 GTTATTTTAA
Statistics
Matches: 77, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
78 62 0.81
79 15 0.19
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (79 bp):
TTAATTAATAATTAATTAATCTTAGATATAGGTTTAATTCAAATTTCACTCAATTATATAATTCA
AATAAATAAAATTT
Found at i:10019444 original size:25 final size:26
Alignment explanation
Indices: 10019397--10019446 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
10019387 TATATAATTC
*
10019397 AAATAAATAAAATTTGTTATTTTAAA
1 AAATAAATAAAATTTCTTATTTTAAA
10019423 AAATAAA-AAAATTATCTT-TTTTAA
1 AAATAAATAAAATT-TCTTATTTTAA
10019447 TATCAACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (26 bp):
AAATAAATAAAATTTCTTATTTTAAA
Found at i:10024052 original size:31 final size:31
Alignment explanation
Indices: 10024017--10024180 Score: 127
Period size: 31 Copynumber: 5.2 Consensus size: 31
10024007 AAATGTATGT
* *
10024017 ATATACTTATCAAATAATTATAATCGAATGC
1 ATATACATATCAAATAATTATAACCGAATGC
* * * *
10024048 ATATATACTTATCAACTACTTATAACCAAATGC
1 --ATATACATATCAAATAATTATAACCGAATGC
* * *
10024081 ATATACACATCAAAT-GTATACAACCGAATGC
1 ATATACATATCAAATAAT-TATAACCGAATGC
* * *
10024112 ATATATACCTATCAAATACTTATAATCGAATGC
1 --ATATACATATCAAATAATTATAACCGAATGC
*
10024145 ATATACACATCAAAGGT-A-TATAACCGAATGC
1 ATATACATATCAAA--TAATTATAACCGAATGC
10024176 ATATA
1 ATATA
10024181 TATACCTATC
Statistics
Matches: 106, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
30 1 0.01
31 52 0.49
33 52 0.49
34 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (31 bp):
ATATACATATCAAATAATTATAACCGAATGC
Found at i:10024218 original size:66 final size:66
Alignment explanation
Indices: 10024035--10024327 Score: 398
Period size: 66 Copynumber: 4.5 Consensus size: 66
10024025 ATCAAATAAT
* * * * *
10024035 TATAATCGAATGC--ATATATACTTATCAACTACTTATAA-CCAAATGCATATACACATCAAATG
1 TATAACCGAATGCATATATATACCTATCAAATACTTATAATCGAAA-GCATATACACATCAAAGG
10024097 TA
65 TA
* *
10024099 TACAACCGAATGC--ATATATACCTATCAAATACTTATAATCGAATGCATATACACATCAAAGGT
1 TATAACCGAATGCATATATATACCTATCAAATACTTATAATCGAAAGCATATACACATCAAAGGT
10024162 A
66 A
* * *
10024163 TATAACCGAATGCATATATATACCTATCAAATTCTTATAATTGAAAGCATATACACTTCAAAGGT
1 TATAACCGAATGCATATATATACCTATCAAATACTTATAATCGAAAGCATATACACATCAAAGGT
10024228 A
66 A
* * *
10024229 TATAACCGAATGCATATATATACCTATCAAATACTTATAATCGAATGAATATACACTTCAAAGGT
1 TATAACCGAATGCATATATATACCTATCAAATACTTATAATCGAAAGCATATACACATCAAAGGT
10024294 A
66 A
** *
10024295 TATAACTAAATGCATATATATACTTATCAAATA
1 TATAACCGAATGCATATATATACCTATCAAATA
10024328 AGATGTAAAT
Statistics
Matches: 207, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
64 65 0.31
65 3 0.01
66 139 0.67
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (66 bp):
TATAACCGAATGCATATATATACCTATCAAATACTTATAATCGAAAGCATATACACATCAAAGGT
A
Found at i:10024312 original size:31 final size:30
Alignment explanation
Indices: 10024068--10024312 Score: 152
Period size: 31 Copynumber: 7.6 Consensus size: 30
10024058 ATCAACTACT
* *
10024068 TATAACCAAATGCATATACACATCAAATGTA
1 TATAACCGAATGCATATACACTTCAAA-GTA
* *
10024099 TACAACCGAATGCATATATACCTATCAAA-TA
1 TATAACCGAATGCATATACA-CT-TCAAAGTA
* *
10024130 CTTATAATCGAATGCATATACACATCAAAGGTA
1 --TATAACCGAATGCATATACACTTCAAA-GTA
* * *
10024163 TATAACCGAATGCATATATATACCTATCAAATTCT
1 TATAACCGAATGC--ATATACA-CT-TCAAAGT-A
** *
10024198 TATAATTGAAAGCATATACACTTCAAAGGTA
1 TATAACCGAATGCATATACACTTCAAA-GTA
*
10024229 TATAACCGAATGCATATATATACCTATCAAA-TA
1 TATAACCGAATGC--ATATACA-CT-TCAAAGTA
* *
10024262 CTTATAATCGAATGAATATACACTTCAAAGGTA
1 --TATAACCGAATGCATATACACTTCAAA-GTA
**
10024295 TATAACTAAATGCATATA
1 TATAACCGAATGCATATA
10024313 TATACTTATC
Statistics
Matches: 164, Mismatches: 30, Indels: 40
0.70 0.13 0.17
Matches are distributed among these distances:
31 70 0.43
32 7 0.04
33 52 0.32
34 4 0.02
35 31 0.19
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (30 bp):
TATAACCGAATGCATATACACTTCAAAGTA
Found at i:10024516 original size:40 final size:41
Alignment explanation
Indices: 10024467--10024564 Score: 153
Period size: 40 Copynumber: 2.4 Consensus size: 41
10024457 TCAGAACACT
10024467 GGCATTAAGCCTGCTAGACATTAAGTCTGAAAAA-TTCACC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGAAAAATTTCACC
* * **
10024507 GGCATTAAGCCTGATAGACATTAAGTTTGAAAAATTTCATT
1 GGCATTAAGCCTGCTAGACATTAAGTCTGAAAAATTTCACC
10024548 GGCATTAAGCCTGCTAG
1 GGCATTAAGCCTGCTAG
10024565 GCACAAAACT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
40 32 0.62
41 20 0.38
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (41 bp):
GGCATTAAGCCTGCTAGACATTAAGTCTGAAAAATTTCACC
Found at i:10024578 original size:41 final size:40
Alignment explanation
Indices: 10024463--10024578 Score: 101
Period size: 41 Copynumber: 2.9 Consensus size: 40
10024453 TGACTCAGAA
* *
10024463 CACTGGCATTAAGCCTGCTA-G-ACATTAAGTCTGAAAAATT
1 CACTGGCATTAAGCCTGCTAGGCACA-AAACT-TGAAAAATT
* * * ** **
10024503 CACCGGCATTAAGCCTGATAGACATTAAGTTTGAAAAATTT
1 CACTGGCATTAAGCCTGCTAGGCACAAAACTTGAAAAA-TT
*
10024544 CATTGGCATTAAGCCTGCTAGGCACAAAACTTGAA
1 CACTGGCATTAAGCCTGCTAGGCACAAAACTTGAA
10024579 CATCACAGAT
Statistics
Matches: 57, Mismatches: 16, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
40 25 0.44
41 31 0.54
42 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (40 bp):
CACTGGCATTAAGCCTGCTAGGCACAAAACTTGAAAAATT
Found at i:10024898 original size:79 final size:78
Alignment explanation
Indices: 10024713--10024969 Score: 324
Period size: 79 Copynumber: 3.3 Consensus size: 78
10024703 AAATATTTAC
* * * * * * * *
10024713 AATTCATACTTTTAATTCAACTCAAGT-ACTTGTATATGTATATAC--ATCTATTCGAATCACAC
1 AATTCATACATTTAATTCAATTCAA-TAACTTATACATGTATATACATATATATTTGAACCTCAC
* *
10024775 ACATACATATGTAA
65 ATATACATATATAA
* *
10024789 AATTCATACCTTTAATTCAATTCAAGAACTTATACATGTATATACATATATATTTGAACCTCACA
1 AATTCATACATTTAATTCAATTCAATAACTTATACATGTATATACATATATATTTGAACCTCACA
10024854 TATACATATATATA
66 TATACATATATA-A
*
10024868 TATTTCATAC-TTTAATTCAATTCAATAACTTATACATGTATATACATATATATATTCGAACCTC
1 -AATTCATACATTTAATTCAATTCAATAACTTATACATGTATATACATATATAT-TT-GAACCTC
10024932 ACATATACATATATAA
63 ACATATACATATATAA
10024948 AATTCATACATTTAATTCAATT
1 AATTCATACATTTAATTCAATT
10024970 TATATACTTT
Statistics
Matches: 159, Mismatches: 14, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
76 39 0.25
78 24 0.15
79 51 0.32
80 23 0.14
81 22 0.14
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.39
Consensus pattern (78 bp):
AATTCATACATTTAATTCAATTCAATAACTTATACATGTATATACATATATATTTGAACCTCACA
TATACATATATAA
Found at i:10027924 original size:19 final size:19
Alignment explanation
Indices: 10027888--10027927 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
10027878 TAGCATTAAT
10027888 ATTAACTAAATGCAAATGA
1 ATTAACTAAATGCAAATGA
10027907 ATTAATCTAAATGC-AATGA
1 ATTAA-CTAAATGCAAATGA
10027926 AT
1 AT
10027928 GAGATGAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (19 bp):
ATTAACTAAATGCAAATGA
Found at i:10028785 original size:15 final size:15
Alignment explanation
Indices: 10028765--10028814 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
10028755 AAGGAGAGAA
*
10028765 AATGAACTAGTGAA-G
1 AATGAA-TAATGAATG
10028780 AATGAATAATGAATG
1 AATGAATAATGAATG
* *
10028795 AATGAATGATGGATG
1 AATGAATAATGAATG
10028810 AATGA
1 AATGA
10028815 TATTGGAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
14 6 0.19
15 25 0.81
ACGTcount: A:0.48, C:0.02, G:0.26, T:0.24
Consensus pattern (15 bp):
AATGAATAATGAATG
Found at i:10028794 original size:4 final size:4
Alignment explanation
Indices: 10028775--10028814 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
10028765 AATGAACTAG
*
10028775 TGAA -GAA TGAA T-AA TGAA TGAA TGAA TG-A TGGA TGAA TGA
1 TGAA TGAA TGAA TGAA TGAA TGAA TGAA TGAA TGAA TGAA TGA
10028815 TATTGGAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
3 9 0.28
4 23 0.72
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (4 bp):
TGAA
Found at i:10029381 original size:16 final size:17
Alignment explanation
Indices: 10029360--10029392 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10029350 AAATTAACTC
10029360 TACAAA-TTAATAAAAT
1 TACAAACTTAATAAAAT
*
10029376 TACAAACTTACTAAAAT
1 TACAAACTTAATAAAAT
10029393 CATGTTCGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (17 bp):
TACAAACTTAATAAAAT
Found at i:10039848 original size:6 final size:6
Alignment explanation
Indices: 10039837--10039890 Score: 108
Period size: 6 Copynumber: 9.0 Consensus size: 6
10039827 AAATGAATTC
10039837 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
10039885 ATACAT
1 ATACAT
10039891 GAATATACTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:10055647 original size:22 final size:22
Alignment explanation
Indices: 10055622--10055667 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
10055612 AATCAAGTAT
*
10055622 TTGTCTCGAAACATGTTGCAAA
1 TTGTCTCGAAACATATTGCAAA
**
10055644 TTGTCTCGAGTCATATTGCAAA
1 TTGTCTCGAAACATATTGCAAA
10055666 TT
1 TT
10055668 TTCTTGAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (22 bp):
TTGTCTCGAAACATATTGCAAA
Found at i:10055961 original size:5 final size:5
Alignment explanation
Indices: 10055951--10055982 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
10055941 ATTCTTTCAA
10055951 GTATT GTATT GTATT GTATT GTATT GTATT GT
1 GTATT GTATT GTATT GTATT GTATT GTATT GT
10055983 GAGTGTGAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.59
Consensus pattern (5 bp):
GTATT
Found at i:10057230 original size:21 final size:22
Alignment explanation
Indices: 10057206--10057247 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
10057196 TCATTATCGA
10057206 TTTAAATTTTAA-AATATTTTT
1 TTTAAATTTTAATAATATTTTT
**
10057227 TTTATTTTTTAATAATATTTT
1 TTTAAATTTTAATAATATTTT
10057248 ACAAATCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTAAATTTTAATAATATTTTT
Found at i:10057265 original size:18 final size:18
Alignment explanation
Indices: 10057244--10057284 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
10057234 TTTAATAATA
10057244 TTTTACAAATCTAAAATT
1 TTTTACAAATCTAAAATT
* * *
10057262 TTTTAGAAATTTTAAATT
1 TTTTACAAATCTAAAATT
10057280 TTTTA
1 TTTTA
10057285 TAATTAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (18 bp):
TTTTACAAATCTAAAATT
Found at i:10059870 original size:21 final size:21
Alignment explanation
Indices: 10059845--10059885 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10059835 TAACAATTAC
*
10059845 AATGAAATTAATTATTGTAGA
1 AATGAAATTAAGTATTGTAGA
* *
10059866 AATGAGATTGAGTATTGTAG
1 AATGAAATTAAGTATTGTAG
10059886 TGGTGAGATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (21 bp):
AATGAAATTAAGTATTGTAGA
Found at i:10061750 original size:15 final size:15
Alignment explanation
Indices: 10061730--10061763 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
10061720 GATGCATATG
10061730 CCATTTAACAAGCTA
1 CCATTTAACAAGCTA
10061745 CCATTTAACAAGCTA
1 CCATTTAACAAGCTA
10061760 CCAT
1 CCAT
10061764 CACATACACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.29, G:0.06, T:0.26
Consensus pattern (15 bp):
CCATTTAACAAGCTA
Found at i:10062914 original size:8 final size:8
Alignment explanation
Indices: 10062901--10062926 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
10062891 ATATAATAAA
10062901 TTTTTATT
1 TTTTTATT
10062909 TTTTTATT
1 TTTTTATT
10062917 TTTTTATT
1 TTTTTATT
10062925 TT
1 TT
10062927 AAAATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTATT
Found at i:10064048 original size:17 final size:18
Alignment explanation
Indices: 10064026--10064072 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
10064016 AAAACTATAA
10064026 AAAAAATTATAAATTA-T
1 AAAAAATTATAAATTATT
**
10064043 AAAAAAAAAT-AATTATT
1 AAAAAATTATAAATTATT
10064060 AAAAAATTA-AAAT
1 AAAAAATTATAAAT
10064073 CCCTTTTACG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAAATTATAAATTATT
Found at i:10064060 original size:19 final size:18
Alignment explanation
Indices: 10064021--10064065 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
10064011 AGTGCAAAAC
10064021 TATAAAAAAAATTATAAAT
1 TATAAAAAAAA-TATAAAT
10064040 TATAAAAAAAA-AT-AAT
1 TATAAAAAAAATATAAAT
10064056 TATTAAAAAA
1 TA-TAAAAAA
10064066 TTAAAATCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.20
17 9 0.36
19 11 0.44
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TATAAAAAAAATATAAAT
Found at i:10064408 original size:19 final size:20
Alignment explanation
Indices: 10064384--10064426 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
10064374 TAGATGTACA
* *
10064384 TTTTATTAATT-TTTATATT
1 TTTTATAAATTATTAATATT
10064403 TTTTATAAATTATTAATATT
1 TTTTATAAATTATTAATATT
10064423 TTTT
1 TTTT
10064427 TGACTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTATAAATTATTAATATT
Found at i:10065490 original size:1 final size:1
Alignment explanation
Indices: 10065443--10065470 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
10065433 TTAGTGAGGG
10065443 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
10065471 ATAAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:10075674 original size:27 final size:26
Alignment explanation
Indices: 10075618--10075674 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
10075608 AATAGTTTTA
* *
10075618 GTCAAAATTAAAAAACAAAATATCAC
1 GTCAAAATTAAAAAAAAAAATACCAC
*
10075644 GTCAAAAGTTAAAAAAAAAAATACCAT
1 GTCAAAA-TTAAAAAAAAAAATACCAC
10075671 GTCA
1 GTCA
10075675 GCAATAGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.60, C:0.14, G:0.07, T:0.19
Consensus pattern (26 bp):
GTCAAAATTAAAAAAAAAAATACCAC
Found at i:10079605 original size:323 final size:324
Alignment explanation
Indices: 10079007--10079653 Score: 1287
Period size: 323 Copynumber: 2.0 Consensus size: 324
10078997 ATAATAAATA
10079007 AATTAATATAACATATCAATTATATTAATAAACACAATTCCCCAAACATTAAATACACTGAAATA
1 AATTAATATAACATATCAATTATATTAATAAACACAATTCCCCAAACATTAAATACACTGAAATA
10079072 ACCAATTATAAAAAATAGGTTCATACCTTAAATACGAAAAACCGATATAAGATTCTTCAAAAACA
66 ACCAATTATAAAAAATAGGTTCATACCTTAAATACGAAAAACCGATATAAGATTCTTCAAAAACA
10079137 TTAATAAAACAAATTAATCAAACCTAAATACAAACTTAAAGCTAATAAAATAAAACAATAGAAAA
131 TTAATAAAACAAATTAATCAAACCTAAATACAAACTTAAAGCTAATAAAATAAAACAATAGAAAA
10079202 TAACATTTCAAGTAAATACGAAAAACTAATATAAAATACCACAAAAACATTAATAAAACAAATTA
196 TAACATTTCAAGTAAATACGAAAAACTAATATAAAATACCACAAAAACATTAATAAAACAAATTA
10079267 ATCATACATTTAATACAAATCCAAAACTAAAAAAACGCAACAACAACAAAAATATCCTTCCCCT
261 ATCATACATTTAATACAAATCCAAAACTAAAAAAACGCAACAACAACAAAAATATCCTTCCCCT
10079331 AATTAATAT-ACATATCAATTATATTAATAAACACAATTCCCCAAACATTAAATACACTGAAATA
1 AATTAATATAACATATCAATTATATTAATAAACACAATTCCCCAAACATTAAATACACTGAAATA
10079395 ACCAATTATAAAAAATAGGTTCATACCTTAAATACGAAAAACCGATATAAGATTCTTCAAAAACA
66 ACCAATTATAAAAAATAGGTTCATACCTTAAATACGAAAAACCGATATAAGATTCTTCAAAAACA
10079460 TTAATAAAACAAATTAATCAAACCTAAATACAAACTTAAAGCTAATAAAATAAAACAATAGAAAA
131 TTAATAAAACAAATTAATCAAACCTAAATACAAACTTAAAGCTAATAAAATAAAACAATAGAAAA
10079525 TAACATTTCAAGTAAATACGAAAAACTAATATAAAATACCACAAAAACATTAATAAAACAAATTA
196 TAACATTTCAAGTAAATACGAAAAACTAATATAAAATACCACAAAAACATTAATAAAACAAATTA
10079590 ATCATACATTTAATACAAATCCAAAACTAAAAAAACGCAACAACAACAAAAATATCCTTCCCCT
261 ATCATACATTTAATACAAATCCAAAACTAAAAAAACGCAACAACAACAAAAATATCCTTCCCCT
10079654 TAAACATGAA
Statistics
Matches: 323, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
323 314 0.97
324 9 0.03
ACGTcount: A:0.55, C:0.17, G:0.03, T:0.24
Consensus pattern (324 bp):
AATTAATATAACATATCAATTATATTAATAAACACAATTCCCCAAACATTAAATACACTGAAATA
ACCAATTATAAAAAATAGGTTCATACCTTAAATACGAAAAACCGATATAAGATTCTTCAAAAACA
TTAATAAAACAAATTAATCAAACCTAAATACAAACTTAAAGCTAATAAAATAAAACAATAGAAAA
TAACATTTCAAGTAAATACGAAAAACTAATATAAAATACCACAAAAACATTAATAAAACAAATTA
ATCATACATTTAATACAAATCCAAAACTAAAAAAACGCAACAACAACAAAAATATCCTTCCCCT
Found at i:10084286 original size:4 final size:4
Alignment explanation
Indices: 10084270--10084301 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
10084260 TTATAAAATG
*
10084270 TAAA TAGA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
10084302 ACAACATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:10084890 original size:29 final size:29
Alignment explanation
Indices: 10084836--10084896 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
10084826 TATTTTTTAA
10084836 ATTTTAAAAATTCAAAAAAATATAAAAATT
1 ATTTTAAAAATT-AAAAAAATATAAAAATT
* *
10084866 ATTTTAGAAAATT-AAAAAGTATAAATATT
1 ATTTTA-AAAATTAAAAAAATATAAAAATT
10084895 AT
1 AT
10084897 AAAAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 16 0.57
30 6 0.21
31 6 0.21
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (29 bp):
ATTTTAAAAATTAAAAAAATATAAAAATT
Found at i:10088735 original size:24 final size:24
Alignment explanation
Indices: 10088708--10088755 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
10088698 AAGATTTAAT
10088708 ATTTATTAGTATAATATATTTGAC
1 ATTTATTAGTATAATATATTTGAC
* *
10088732 ATTTATTAGTATAGTTTATTTGAC
1 ATTTATTAGTATAATATATTTGAC
10088756 TTACTAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTATTAGTATAATATATTTGAC
Found at i:10090654 original size:24 final size:24
Alignment explanation
Indices: 10090627--10090674 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
10090617 AAGGTTTAGT
10090627 ATTTATTAGTATAATATATTTGAC
1 ATTTATTAGTATAATATATTTGAC
* *
10090651 ATTTATTAGTATAGTTTATTTGAC
1 ATTTATTAGTATAATATATTTGAC
10090675 TTACTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTATTAGTATAATATATTTGAC
Found at i:10091277 original size:17 final size:17
Alignment explanation
Indices: 10091251--10091283 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10091241 TTTGAATCGG
*
10091251 TTTAATATTTTTTTATT
1 TTTAAAATTTTTTTATT
10091268 TTTAAAATTTTTTTAT
1 TTTAAAATTTTTTTAT
10091284 GAATTATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTAAAATTTTTTTATT
Found at i:10092093 original size:25 final size:25
Alignment explanation
Indices: 10092065--10092172 Score: 108
Period size: 25 Copynumber: 4.3 Consensus size: 25
10092055 GTATGCTCTC
* * *
10092065 ACGAGTTGCGAATTGGGAAACTCAT
1 ACGAGCTGCAAATCGGGAAACTCAT
*
10092090 ACGAGCTGCAAATCGGGAAGCTCAT
1 ACGAGCTGCAAATCGGGAAACTCAT
* * *
10092115 ACGAGCTGTAAATCGAGAAGCTCAT
1 ACGAGCTGCAAATCGGGAAACTCAT
* * * *
10092140 ACGATCTGTAAATCGAGAAGCTCAT
1 ACGAGCTGCAAATCGGGAAACTCAT
*
10092165 ATGAGCTG
1 ACGAGCTG
10092173 TGGTATGTCT
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 74 1.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.21
Consensus pattern (25 bp):
ACGAGCTGCAAATCGGGAAACTCAT
Found at i:10092173 original size:25 final size:25
Alignment explanation
Indices: 10092085--10092173 Score: 142
Period size: 25 Copynumber: 3.6 Consensus size: 25
10092075 AATTGGGAAA
* *
10092085 CTCATACGAGCTGCAAATCGGGAAG
1 CTCATACGAGCTGTAAATCGAGAAG
10092110 CTCATACGAGCTGTAAATCGAGAAG
1 CTCATACGAGCTGTAAATCGAGAAG
*
10092135 CTCATACGATCTGTAAATCGAGAAG
1 CTCATACGAGCTGTAAATCGAGAAG
*
10092160 CTCATATGAGCTGT
1 CTCATACGAGCTGT
10092174 GGTATGTCTG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (25 bp):
CTCATACGAGCTGTAAATCGAGAAG
Found at i:10094205 original size:10 final size:9
Alignment explanation
Indices: 10094184--10094226 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
10094174 AATATTAATT
*
10094184 TTAATCAAA
1 TTAATTAAA
10094193 TTAAATTAAA
1 TT-AATTAAA
*
10094203 TTAATCAAA
1 TTAATTAAA
10094212 TTAATTAAAA
1 TTAATT-AAA
10094222 TTAAT
1 TTAAT
10094227 ATGATATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 13 0.45
10 16 0.55
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (9 bp):
TTAATTAAA
Found at i:10094208 original size:19 final size:19
Alignment explanation
Indices: 10094184--10094226 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
10094174 AATATTAATT
10094184 TTAATCAAATTAAATT-AAA
1 TTAATCAAATT-AATTAAAA
10094203 TTAATCAAATTAATTAAAA
1 TTAATCAAATTAATTAAAA
10094222 TTAAT
1 TTAAT
10094227 ATGATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAATCAAATTAATTAAAA
Found at i:10094771 original size:5 final size:6
Alignment explanation
Indices: 10094698--10094817 Score: 57
Period size: 5 Copynumber: 21.3 Consensus size: 6
10094688 TGACTATCTA
* * * * * *
10094698 AATATT AAAATT AAT-TT AATGTT TATCTT ATATATA AATATT -CTATT
1 AATATT AATATT AATATT AATATT AATATT A-ATATT AATATT AATATT
*
10094745 AAT-TT AATA-- AGAT-TT AATATT AA-ATT AATA-T AATATT --TATC
1 AATATT AATATT A-ATATT AATATT AATATT AATATT AATATT AATATT
10094786 AATATAT AAATATT -ATATT AAT-TT AATATT AA
1 AATAT-T -AATATT AATATT AATATT AATATT AA
10094818 GGTGATTAAG
Statistics
Matches: 86, Mismatches: 12, Indels: 32
0.66 0.09 0.25
Matches are distributed among these distances:
4 4 0.05
5 38 0.44
6 34 0.40
7 5 0.06
8 5 0.06
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (6 bp):
AATATT
Found at i:10094806 original size:60 final size:62
Alignment explanation
Indices: 10094698--10094813 Score: 182
Period size: 60 Copynumber: 1.9 Consensus size: 62
10094688 TGACTATCTA
* * * *
10094698 AATATTAAAATTAATTTAATGTTTATCTTATATATAAATATTCTATTAATTTAATAAGATTT
1 AATATTAAAATTAATATAATATTTATCTAATATATAAATATTATATTAATTTAATAAGATTT
10094760 AATATT-AAATTAATATAATATTTATC-AATATATAAATATTATATTAATTTAATA
1 AATATTAAAATTAATATAATATTTATCTAATATATAAATATTATATTAATTTAATA
10094814 TTAAGGTGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
60 26 0.52
61 18 0.36
62 6 0.12
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (62 bp):
AATATTAAAATTAATATAATATTTATCTAATATATAAATATTATATTAATTTAATAAGATTT
Found at i:10099269 original size:9 final size:9
Alignment explanation
Indices: 10099257--10099295 Score: 69
Period size: 9 Copynumber: 4.3 Consensus size: 9
10099247 CCATTTAATT
10099257 AATTTTTAA
1 AATTTTTAA
10099266 AATTTTTAA
1 AATTTTTAA
10099275 AATTTTTAA
1 AATTTTTAA
*
10099284 AAATTTTAA
1 AATTTTTAA
10099293 AAT
1 AAT
10099296 AAAAAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
AATTTTTAA
Found at i:10118378 original size:77 final size:78
Alignment explanation
Indices: 10118274--10118493 Score: 202
Period size: 77 Copynumber: 2.8 Consensus size: 78
10118264 TATTTGGATC
* **
10118274 GCAGAATCAATCATCTAGATGACTTCCAATATGTTTTGGTTTATTAAATAAATGTTTCTTGTAAT
1 GCAGAATCAACCATCTAGATGGGTTCCAATATGTTTTGGTTTATTAAATAAATGTTTCTTGTAAT
* *
10118339 GTC-GTCT-AGATG
66 GACTATCTGA-ATG
* * * * *
10118351 GCAGAATCAGCCACCTAGATGGGTTCCAATTTATTTTGG-TTAGGTAAATAAAT-TTATCTTGTA
1 GCAGAATCAACCATCTAGATGGGTTCCAATATGTTTTGGTTTA-TTAAATAAATGTT-TCTTGTA
10118414 AT-ACTATCTGAATG
64 ATGACTATCTGAATG
* * * * * *
10118428 GTAGAATAAACCATCTAGATGGCG-TCCAATATGCTTCT-ATTTATTAAATAATTGTTTCATGTA
1 GCAGAATCAACCATCTAGATGG-GTTCCAATATG-TTTTGGTTTATTAAATAAATGTTTCTTGTA
10118491 ATG
64 ATG
10118494 CCATCGAATG
Statistics
Matches: 113, Mismatches: 21, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
76 6 0.05
77 97 0.86
78 10 0.09
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (78 bp):
GCAGAATCAACCATCTAGATGGGTTCCAATATGTTTTGGTTTATTAAATAAATGTTTCTTGTAAT
GACTATCTGAATG
Found at i:10119291 original size:17 final size:17
Alignment explanation
Indices: 10119271--10119303 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10119261 AAATATTGAG
10119271 TTAGATAAATGAAATGT
1 TTAGATAAATGAAATGT
10119288 TTAGATAAATGAAATG
1 TTAGATAAATGAAATG
10119304 GAGTTTACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.33
Consensus pattern (17 bp):
TTAGATAAATGAAATGT
Found at i:10120191 original size:19 final size:19
Alignment explanation
Indices: 10120167--10120208 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
10120157 AATAACTAGT
10120167 TCTCATTGATGATACAATG
1 TCTCATTGATGATACAATG
10120186 TCTCATTGATGATACAATG
1 TCTCATTGATGATACAATG
10120205 TCTC
1 TCTC
10120209 TTGTTGCAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (19 bp):
TCTCATTGATGATACAATG
Found at i:10125211 original size:30 final size:31
Alignment explanation
Indices: 10125172--10125231 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
10125162 AGAGGTGGGA
*
10125172 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
10125203 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
10125232 TAAAAGTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:10125330 original size:53 final size:53
Alignment explanation
Indices: 10125269--10125374 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
10125259 AAAATTTTGA
*
10125269 GAAAAAGTAAATGGAAGAGTAAAATTTTGGTGGGAAATGGATTTTGGGTAGAT
1 GAAAAAGTAAATGGAAGAGTAAAATTTTGGTGGGAAATGAATTTTGGGTAGAT
10125322 GAAAAAGTAAATGGAAGAGTAAAATTTTGGTGGGAAATGAATTTTGGGTAGAT
1 GAAAAAGTAAATGGAAGAGTAAAATTTTGGTGGGAAATGAATTTTGGGTAGAT
10125375 TGGGGGGTTG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (53 bp):
GAAAAAGTAAATGGAAGAGTAAAATTTTGGTGGGAAATGAATTTTGGGTAGAT
Found at i:10125448 original size:29 final size:31
Alignment explanation
Indices: 10125389--10125448 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
10125379 GGGTTGGGAG
* *
10125389 GGGAGAGGAGTAAAAGTTTTGGGGGGAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
10125420 GGGA-AGGAGTAAAAG-TTTGAGGGAAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
10125449 AAAAATGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 12 0.44
30 11 0.41
31 4 0.15
ACGTcount: A:0.37, C:0.00, G:0.45, T:0.18
Consensus pattern (31 bp):
GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:10129986 original size:19 final size:18
Alignment explanation
Indices: 10129962--10130001 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
10129952 TTCGTATTAG
10129962 AAAATTT-TTTAATTTATTT
1 AAAATTTATTT-ATTT-TTT
10129981 AAAATTTATTTATTTTTT
1 AAAATTTATTTATTTTTT
10129999 AAA
1 AAA
10130002 TTATCATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 11 0.55
20 3 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
AAAATTTATTTATTTTTT
Found at i:10130174 original size:20 final size:20
Alignment explanation
Indices: 10130151--10130229 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
10130141 ATGAGACAAG
*
10130151 ACCAAAAAATATGAGGGACT
1 ACCAAAAAATATGAGAGACT
* *
10130171 ACCAGAAAACATGAGAGACT
1 ACCAAAAAATATGAGAGACT
* * * *
10130191 ACCAATAAATATGAAAAAAT
1 ACCAAAAAATATGAGAGACT
10130211 ACCAAAAAAATATGAGAGA
1 ACC-AAAAAATATGAGAGA
10130230 ACATGAGATA
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
20 34 0.74
21 12 0.26
ACGTcount: A:0.57, C:0.14, G:0.15, T:0.14
Consensus pattern (20 bp):
ACCAAAAAATATGAGAGACT
Found at i:10130214 original size:40 final size:41
Alignment explanation
Indices: 10130133--10130230 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 41
10130123 AAAAAGAAAA
* *** *
10130133 AAGAAAACATGAGACAAGACCAAAAAATATGAGGGACTACC
1 AAGAAAACATGAGAGAAGACCAAAAAATATGAAAAAATACC
** *
10130174 -AGAAAACATGAGAGACTACCAATAAATATGAAAAAATACC
1 AAGAAAACATGAGAGAAGACCAAAAAATATGAAAAAATACC
* *
10130214 AAAAAAATATGAGAGAA
1 AAGAAAACATGAGAGAA
10130231 CATGAGATAA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
40 32 0.71
41 13 0.29
ACGTcount: A:0.58, C:0.13, G:0.16, T:0.12
Consensus pattern (41 bp):
AAGAAAACATGAGAGAAGACCAAAAAATATGAAAAAATACC
Found at i:10130588 original size:40 final size:39
Alignment explanation
Indices: 10130544--10130757 Score: 121
Period size: 40 Copynumber: 5.2 Consensus size: 39
10130534 GGGATTATAG
*
10130544 AAAAAGATGAGAAGATACCAAAAATTGTGAGGGACTACCA
1 AAAAAGATGAGAAGATACCAAAAA-TATGAGGGACTACCA
* * * *
10130584 AAAAACAT-AAAGAGATACCAAAACATATGACGGATTACCA
1 AAAAAGATGAGA-AGATACCAAAA-ATATGAGGGACTACCA
* * * *
10130624 GAAAACATGAG-GGCATACCAAGAAATATGAGGATAC-ACCA
1 AAAAAGATGAGAAG-ATACCAA-AAATATGAGG-GACTACCA
** * * *
10130664 AAAAATCTGA-AAGCTTTTACCAAAAAAACATGAGGGATTACCA
1 AAAAAGATGAGAAG---ATACC--AAAAATATGAGGGACTACCA
* * *
10130707 AAAAAGATGAGAAAATACCATAAATTGTGAGGGACTACCAA
1 AAAAAGATGAGAAGATACCA-AAAATATGAGGGACTACC-A
10130748 ATAAAAGATG
1 A-AAAAGATG
10130758 GCAAAATACC
Statistics
Matches: 130, Mismatches: 28, Indels: 30
0.69 0.15 0.16
Matches are distributed among these distances:
39 4 0.03
40 77 0.59
41 11 0.08
42 13 0.10
43 21 0.16
44 4 0.03
ACGTcount: A:0.51, C:0.14, G:0.18, T:0.16
Consensus pattern (39 bp):
AAAAAGATGAGAAGATACCAAAAATATGAGGGACTACCA
Found at i:10130711 original size:20 final size:20
Alignment explanation
Indices: 10130527--10130717 Score: 79
Period size: 20 Copynumber: 9.4 Consensus size: 20
10130517 AAAATCTAAG
*
10130527 AACATGAGGGATTA-TAGAAA
1 AACATGAGGGATTACCA-AAA
* *
10130547 AAGATGAGAAGA-TACCAAAA
1 AACATGAG-GGATTACCAAAA
*** *
10130567 ATTGTGAGGGACTACCAAAA
1 AACATGAGGGATTACCAAAA
* *
10130587 AACATAAAGAGA-TACCAAAA
1 AACAT-GAGGGATTACCAAAA
* * * *
10130607 CATATGACGGATTACCAGAA
1 AACATGAGGGATTACCAAAA
*
10130627 AACATGAGGGCA-TACCAAGA
1 AACATGAGGG-ATTACCAAAA
* *
10130647 AATATGA-GGATACACCAAAA
1 AACATGAGGGAT-TACCAAAA
***
10130667 AATC-TGAAAGCTTTTACCAAAAA
1 AA-CATG--AGGGATTACC-AAAA
10130690 AACATGAGGGATTACCAAAA
1 AACATGAGGGATTACCAAAA
*
10130710 AAGATGAG
1 AACATGAG
10130718 AAAATACCAT
Statistics
Matches: 122, Mismatches: 35, Indels: 28
0.66 0.19 0.15
Matches are distributed among these distances:
18 1 0.01
19 7 0.06
20 85 0.70
21 15 0.12
22 5 0.04
23 9 0.07
ACGTcount: A:0.50, C:0.14, G:0.19, T:0.16
Consensus pattern (20 bp):
AACATGAGGGATTACCAAAA
Found at i:10130714 original size:163 final size:158
Alignment explanation
Indices: 10130527--10130938 Score: 427
Period size: 163 Copynumber: 2.5 Consensus size: 158
10130517 AAAATCTAAG
10130527 AACATGAGGGATTATAGAAAAAGATGAGAAGATACCAAAAATTGTGAGGGACTACCAAAAAACAT
1 AACATGAGGGATTATA-AAAAAGATGAGAAGATACCAAAAATTGTGAGGGACTACCAAAAAACAT
* *
10130592 AAAGAGATACCAAAACATATGA-CGGATT-ACCAGAAAACATGAGGGCATACCAAGAAATATGAG
65 AAAGA-ATACCAAAA-AGATGATC-GATTAACCAAAAAACATGAGGGCATACCAAGAAATATGAG
* *
10130655 GATACACCAAAAAATCTGAA-AGCTTTTACCAAAAA
127 GATACACCAAAAAATCT-AAGAG---TGAACAAAAA
* * * *
10130690 AACATGAGGGATTACCAAAAAAGATGAGAAAATACCATAAATTGTGAGGGACTACCAAATAAAAG
1 AACATGAGGGATTA-TAAAAAAGATGAGAAGATACCAAAAATTGTGAGGGACTACC-AA-AAAAC
* * * * ** ** *
10130755 ATGGCAA-AATACCAGAAAAGGTGATCTATTAACGAAAAAACATGAGGGGTTATGAATAAATATG
63 AT--AAAGAATACCA-AAAAGATGATCGATTAACCAAAAAACATGAGGGCATACCAAGAAATATG
* **
10130819 AGGATATACCAAAAAATCTAAGAGTGAATTAAAA
125 AGGATACACCAAAAAATCTAAGAGTGAACAAAAA
* * *
10130853 AATATGAGGCATTATTGAAAAAGATGAGAAGATACCAAAAATTGTGAGGGACTACCAAAAAACAT
1 AACATGAGGGATTA-TAAAAAAGATGAGAAGATACCAAAAATTGTGAGGGACTACCAAAAAACAT
* *
10130918 TAAGAAATACGAAAAAGATGA
65 AAAG-AATACCAAAAAGATGA
10130939 GATGTACCAA
Statistics
Matches: 207, Mismatches: 31, Indels: 25
0.79 0.12 0.10
Matches are distributed among these distances:
159 2 0.01
160 8 0.04
161 12 0.06
162 2 0.01
163 106 0.51
164 3 0.01
165 21 0.10
166 51 0.25
167 2 0.01
ACGTcount: A:0.51, C:0.12, G:0.19, T:0.18
Consensus pattern (158 bp):
AACATGAGGGATTATAAAAAAGATGAGAAGATACCAAAAATTGTGAGGGACTACCAAAAAACATA
AAGAATACCAAAAAGATGATCGATTAACCAAAAAACATGAGGGCATACCAAGAAATATGAGGATA
CACCAAAAAATCTAAGAGTGAACAAAAA
Found at i:10131468 original size:19 final size:20
Alignment explanation
Indices: 10131430--10131470 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
10131420 AGGATACAAA
*
10131430 AAAAAATATGAGGATATACC
1 AAAAAACATGAGGATATACC
*
10131450 AAAAAACATGA-GATGTACC
1 AAAAAACATGAGGATATACC
10131469 AA
1 AA
10131471 TTTTGGTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.17
Consensus pattern (20 bp):
AAAAAACATGAGGATATACC
Found at i:10139006 original size:21 final size:21
Alignment explanation
Indices: 10138965--10139007 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10138955 GAAAAACTAC
* *
10138965 ATTAAAAGAGATAGAACGAAA
1 ATTAAAAGACATAGAAAGAAA
10138986 ATTAAAAGAACATA-AAAGAAA
1 ATTAAAAG-ACATAGAAAGAAA
10139007 A
1 A
10139008 AAATTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.67, C:0.05, G:0.14, T:0.14
Consensus pattern (21 bp):
ATTAAAAGACATAGAAAGAAA
Found at i:10139721 original size:59 final size:58
Alignment explanation
Indices: 10139608--10139719 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 58
10139598 TTAAATATTT
* * *
10139608 TTTTATATTTTTATAAAAAAAATTTAAAATCTATATTGGTCATTTCATTCTTTTGGATA
1 TTTTATA-TTTTAAAAAAAAAATTTAAAATCTATATCGGTCATTTCATGCTTTTGGATA
* *
10139667 TTTTATA-TTTAAAAAAAAAATTGTTAAAATGTATATCGGTCATTT-GTGCTTTT
1 TTTTATATTTTAAAAAAAAAA-T-TTAAAATCTATATCGGTCATTTCATGCTTTT
10139720 TGTTAGTCTA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
57 12 0.26
58 7 0.15
59 27 0.59
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (58 bp):
TTTTATATTTTAAAAAAAAAATTTAAAATCTATATCGGTCATTTCATGCTTTTGGATA
Found at i:10147336 original size:13 final size:13
Alignment explanation
Indices: 10147318--10147370 Score: 67
Period size: 13 Copynumber: 4.3 Consensus size: 13
10147308 AGCCCAAACT
10147318 CAATTACCCAACC
1 CAATTACCCAACC
10147331 CAATTACCCAACC
1 CAATTACCCAACC
*
10147344 CAA-TA--AAACC
1 CAATTACCCAACC
*
10147354 CAATTACCCAATC
1 CAATTACCCAACC
10147367 CAAT
1 CAAT
10147371 AAAACTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 7 0.21
11 2 0.06
12 2 0.06
13 23 0.68
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:10147356 original size:23 final size:23
Alignment explanation
Indices: 10147327--10147375 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
10147317 TCAATTACCC
10147327 AACCCAATTACCCAACCCAATAA
1 AACCCAATTACCCAACCCAATAA
*
10147350 AACCCAATTACCCAATCCAATAA
1 AACCCAATTACCCAACCCAATAA
10147373 AAC
1 AAC
10147376 TAAAACTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.14
Consensus pattern (23 bp):
AACCCAATTACCCAACCCAATAA
Found at i:10147479 original size:9 final size:9
Alignment explanation
Indices: 10147467--10147534 Score: 66
Period size: 9 Copynumber: 7.4 Consensus size: 9
10147457 ATAAAAAAAA
*
10147467 AATTCTGGT
1 AATTCAGGT
10147476 AATTCAGGT
1 AATTCAGGT
*
10147485 ATTTTTC-GGT
1 A--ATTCAGGT
*
10147495 AATTCAGTT
1 AATTCAGGT
*
10147504 AATTCAGTT
1 AATTCAGGT
*
10147513 AATTCGGGT
1 AATTCAGGT
10147522 AATTCAGGT
1 AATTCAGGT
10147531 AATT
1 AATT
10147535 TGGGTAATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
8 3 0.06
9 39 0.80
10 4 0.08
11 3 0.06
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.43
Consensus pattern (9 bp):
AATTCAGGT
Found at i:10147539 original size:18 final size:18
Alignment explanation
Indices: 10147492--10147543 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
10147482 GGTATTTTTC
* *
10147492 GGTAATTCAGTTAATTCA
1 GGTAATTCGGGTAATTCA
*
10147510 GTTAATTCGGGTAATTCA
1 GGTAATTCGGGTAATTCA
*
10147528 GGTAATTTGGGTAATT
1 GGTAATTCGGGTAATT
10147544 TTTAACCAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (18 bp):
GGTAATTCGGGTAATTCA
Found at i:10147542 original size:27 final size:27
Alignment explanation
Indices: 10147467--10147543 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
10147457 ATAAAAAAAA
* *
10147467 AATTCTGGTAATTCAGGTATTTTTC-GGT
1 AATTCAGGTAATTCAGGTA--ATTCGGGT
* *
10147495 AATTCAGTTAATTCAGTTAATTCGGGT
1 AATTCAGGTAATTCAGGTAATTCGGGT
**
10147522 AATTCAGGTAATTTGGGTAATT
1 AATTCAGGTAATTCAGGTAATT
10147544 TTTAACCAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
26 3 0.08
27 21 0.52
28 16 0.40
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (27 bp):
AATTCAGGTAATTCAGGTAATTCGGGT
Found at i:10147544 original size:9 final size:9
Alignment explanation
Indices: 10147492--10147543 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 9
10147482 GGTATTTTTC
*
10147492 GGTAATTCA
1 GGTAATTCG
* *
10147501 GTTAATTCA
1 GGTAATTCG
*
10147510 GTTAATTCG
1 GGTAATTCG
*
10147519 GGTAATTCA
1 GGTAATTCG
*
10147528 GGTAATTTG
1 GGTAATTCG
10147537 GGTAATT
1 GGTAATT
10147544 TTTAACCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (9 bp):
GGTAATTCG
Found at i:10147721 original size:12 final size:12
Alignment explanation
Indices: 10147704--10147728 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10147694 AGTAATTTTG
10147704 GGTCGGTTAACC
1 GGTCGGTTAACC
10147716 GGTCGGTTAACC
1 GGTCGGTTAACC
10147728 G
1 G
10147729 AATGAACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:10155574 original size:27 final size:27
Alignment explanation
Indices: 10155534--10155702 Score: 198
Period size: 27 Copynumber: 6.3 Consensus size: 27
10155524 ATTTGTGGGC
* *
10155534 AAAATGATCAAAATACCCCCGAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
* *
10155561 AAAATGACCGAAATACCTCCAAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
* *
10155588 AAAATGATCGAAATACCCCCAAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
* *
10155615 AAAATGACTG-AATACCCCTGAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
* * *
10155641 ACAATGACCAAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
* *
10155668 AAAATGATCGAAAT-CCCCCCATAGGGT
1 AAAATGACCGAAATACCCCCGA-AGGGT
10155695 AAAATGAC
1 AAAATGAC
10155703 TGTTATACTC
Statistics
Matches: 119, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
26 26 0.22
27 93 0.78
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (27 bp):
AAAATGACCGAAATACCCCCGAAGGGT
Found at i:10155678 original size:80 final size:80
Alignment explanation
Indices: 10155545--10155704 Score: 250
Period size: 80 Copynumber: 2.0 Consensus size: 80
10155535 AAATGATCAA
*
10155545 AATACCCCCGAAGGGTAAAATGACCGAAATACCTCCAAAGGGTAAAATGATCGAAATACCCCCAA
1 AATACCCCCGAAGGGTAAAATGACCAAAATACCTCCAAAGGGTAAAATGATCGAAATACCCCCAA
10155610 AGGGTAAAATGACTG
66 AGGGTAAAATGACTG
* * * *
10155625 AATACCCCTGAAGGGTACAATGACCAAAATACC-CTCGAAGGGTAAAATGATCGAAATCCCCCCA
1 AATACCCCCGAAGGGTAAAATGACCAAAATACCTC-CAAAGGGTAAAATGATCGAAATACCCCCA
*
10155689 TAGGGTAAAATGACTG
65 AAGGGTAAAATGACTG
10155705 TTATACTCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
79 1 0.01
80 72 0.99
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (80 bp):
AATACCCCCGAAGGGTAAAATGACCAAAATACCTCCAAAGGGTAAAATGATCGAAATACCCCCAA
AGGGTAAAATGACTG
Found at i:10155906 original size:26 final size:25
Alignment explanation
Indices: 10155877--10155926 Score: 91
Period size: 26 Copynumber: 2.0 Consensus size: 25
10155867 TTGCCACATA
10155877 TACTGTTACTGGCAGTCTTGCTGCGT
1 TACTGTTACTGGCAG-CTTGCTGCGT
10155903 TACTGTTACTGGCAGCTTGCTGCG
1 TACTGTTACTGGCAGCTTGCTGCG
10155927 ATATTAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.12, C:0.24, G:0.28, T:0.36
Consensus pattern (25 bp):
TACTGTTACTGGCAGCTTGCTGCGT
Found at i:10156087 original size:28 final size:28
Alignment explanation
Indices: 10156046--10156125 Score: 117
Period size: 28 Copynumber: 2.9 Consensus size: 28
10156036 ATTATTGTTT
* *
10156046 TGGGCTAAGACCCACACTGTTACTGTAA
1 TGGGCTAAGGCCCACACTGTTACTATAA
*
10156074 TTGGCTAAGGCCCACACTGTTACTATAA
1 TGGGCTAAGGCCCACACTGTTACTATAA
*
10156102 TGGGCTAAGGCCCACGCTG-TACTA
1 TGGGCTAAGGCCCACACTGTTACTA
10156126 ATACTGTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 5 0.11
28 42 0.89
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (28 bp):
TGGGCTAAGGCCCACACTGTTACTATAA
Found at i:10156301 original size:19 final size:19
Alignment explanation
Indices: 10156273--10156383 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
10156263 AATCTTCAGG
10156273 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
10156292 GATGTGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
10156311 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10156330 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
10156349 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10156368 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
10156384 AGATATGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:10156323 original size:38 final size:38
Alignment explanation
Indices: 10156280--10156383 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
10156270 AGGGATATGC
*
10156280 AATCTTAGATATGATGTGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
10156318 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
10156356 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
10156384 AGATATGATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:10156409 original size:22 final size:21
Alignment explanation
Indices: 10156273--10156409 Score: 105
Period size: 19 Copynumber: 6.9 Consensus size: 21
10156263 AATCTTCAGG
*
10156273 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
10156292 GATGTGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
10156311 AATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
10156330 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
10156349 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
10156368 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
10156390 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
10156410 TTAATTTGTA
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
19 77 0.77
22 12 0.12
23 11 0.11
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:10156574 original size:44 final size:44
Alignment explanation
Indices: 10156512--10156597 Score: 138
Period size: 45 Copynumber: 2.0 Consensus size: 44
10156502 CCTTCATTGT
*
10156512 AAAAAAAAAGGTGGAAT-AAAAAAAGAGAACGATTGGCAGTTAA
1 AAAAAAAAAGGTGGAATAAAAAAAAGAGAACGATTGACAGTTAA
*
10156555 AAAAAAAGAAGGTGTAATAAAAAAAAGAGAACGATTGACAGTT
1 AAAAAAA-AAGGTGGAATAAAAAAAAGAGAACGATTGACAGTT
10156598 TTTAAAGGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 7 0.18
44 9 0.23
45 23 0.59
ACGTcount: A:0.58, C:0.05, G:0.22, T:0.15
Consensus pattern (44 bp):
AAAAAAAAAGGTGGAATAAAAAAAAGAGAACGATTGACAGTTAA
Found at i:10157094 original size:23 final size:23
Alignment explanation
Indices: 10157068--10157111 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
10157058 TTATTATTTT
*
10157068 TATATGTA-ATTATTTTTTTTATC
1 TATATGTATA-TATTTATTTTATC
10157091 TATATGTATATATTTATTTTA
1 TATATGTATATATTTATTTTA
10157112 GTATACATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (23 bp):
TATATGTATATATTTATTTTATC
Found at i:10163528 original size:27 final size:27
Alignment explanation
Indices: 10163498--10163711 Score: 205
Period size: 27 Copynumber: 7.9 Consensus size: 27
10163488 AAAATGATTA
*
10163498 AAATACCCCCAAAGGGTAAAATGATCG
1 AAATACCCCCAAAGGGTAAAATGACCG
* *
10163525 AAATACCCCCGAAGGGTAAAATAACCG
1 AAATACCCCCAAAGGGTAAAATGACCG
** *
10163552 AAATACCCCTGAAGGGTAAAATGACTG
1 AAATACCCCCAAAGGGTAAAATGACCG
** *
10163579 AAATACCCTTGAAA-GGTAAAATGACCA
1 AAATACCC-CCAAAGGGTAAAATGACCG
***
10163606 AAATACCTTTAAAGGGTAAAATGACCG
1 AAATACCCCCAAAGGGTAAAATGACCG
* *** *
10163633 AAATTCCCTTGAAGGGTAAAATGATCG
1 AAATACCCCCAAAGGGTAAAATGACCG
* * * *
10163660 AAATACCCTCGAAGGATAAAATGACTG
1 AAATACCCCCAAAGGGTAAAATGACCG
* *
10163687 AAATCCCCCCATAGGGTAAAATGAC
1 AAATACCCCCAAAGGGTAAAATGAC
10163712 TATTATACTC
Statistics
Matches: 157, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 4 0.03
27 151 0.96
28 2 0.01
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (27 bp):
AAATACCCCCAAAGGGTAAAATGACCG
Found at i:10163623 original size:81 final size:81
Alignment explanation
Indices: 10163536--10163684 Score: 230
Period size: 81 Copynumber: 1.8 Consensus size: 81
10163526 AATACCCCCG
*
10163536 AAGGGTAAAATAACCGAAATACCCCTGAAGGGTAAAATGA-CTGAAATACCCTTGAAAGG-TAAA
1 AAGGGTAAAATAACCGAAATACCCCTGAAGGGTAAAATGATC-GAAATACCCTCG-AAGGATAAA
10163599 ATGACCAAAATACCTTTA
64 ATGACCAAAATACCTTTA
* * *
10163617 AAGGGTAAAATGACCGAAATTCCCTTGAAGGGTAAAATGATCGAAATACCCTCGAAGGATAAAAT
1 AAGGGTAAAATAACCGAAATACCCCTGAAGGGTAAAATGATCGAAATACCCTCGAAGGATAAAAT
10163682 GAC
66 GAC
10163685 TGAAATCCCC
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
80 4 0.06
81 57 0.92
82 1 0.02
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.19
Consensus pattern (81 bp):
AAGGGTAAAATAACCGAAATACCCCTGAAGGGTAAAATGATCGAAATACCCTCGAAGGATAAAAT
GACCAAAATACCTTTA
Found at i:10163703 original size:81 final size:79
Alignment explanation
Indices: 10163488--10163711 Score: 227
Period size: 81 Copynumber: 2.8 Consensus size: 79
10163478 ATTCATGGGC
** * * * *
10163488 AAAATGATTAAAATACCCCCAAAGGGTAAAATGA-TCGAAATACCCCCGAAGGGTAAAATAACCG
1 AAAATGATCGAAATACCCTCGAA-GGTAAAATGACT-GAAAT-CCCCCCAAGGGTAAAATGACCG
10163552 AAATACCCCTGAAGGGT
63 AAATACCCCTGAAGGGT
* ** ****
10163569 AAAATGA-CTGAAATACCCTTGAAAGGTAAAATGACCAAAATACCTTTAAAGGGTAAAATGACCG
1 AAAATGATC-GAAATACCCTCG-AAGGTAAAATGACTGAAAT-CCCCCCAAGGGTAAAATGACCG
* *
10163633 AAATTCCCTTGAAGGGT
63 AAATACCCCTGAAGGGT
10163650 AAAATGATCGAAATACCCTCGAAGGATAAAATGACTGAAATCCCCCCATAGGGTAAAATGAC
1 AAAATGATCGAAATACCCTCGAAGG-TAAAATGACTGAAATCCCCCCA-AGGGTAAAATGAC
10163712 TATTATACTC
Statistics
Matches: 116, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
80 7 0.06
81 106 0.91
82 3 0.03
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (79 bp):
AAAATGATCGAAATACCCTCGAAGGTAAAATGACTGAAATCCCCCCAAGGGTAAAATGACCGAAA
TACCCCTGAAGGGT
Found at i:10164111 original size:28 final size:28
Alignment explanation
Indices: 10164070--10164125 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
10164060 CATTGTACTG
* *
10164070 ATTATTGTATTGGGCTAAAGCCCACACT
1 ATTACTGTAATGGGCTAAAGCCCACACT
* *
10164098 ATTACTGTAATGGGCTAAGGCTCACACT
1 ATTACTGTAATGGGCTAAAGCCCACACT
10164126 GTACTGATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (28 bp):
ATTACTGTAATGGGCTAAAGCCCACACT
Found at i:10170769 original size:62 final size:61
Alignment explanation
Indices: 10170665--10170791 Score: 159
Period size: 62 Copynumber: 2.0 Consensus size: 61
10170655 ATAGAAATGG
* * *
10170665 TGAAAATGGAGAATGGGAACATTTGGAAATGATTATGGTTTTCCCCACAATTG-AAATGAAAA
1 TGAAAATGGAGAAT-GGAACATTTGGAAATGAATATGATTTTCCCCA-AAATGAAAATGAAAA
* *
10170727 TGAAAATGGAGAAAT-GAATCATTTGGAAATGAATGTGATTTTCTCCAAAATGAAAATGAAAA
1 TGAAAATGGAG-AATGGAA-CATTTGGAAATGAATATGATTTTCCCCAAAATGAAAATGAAAA
10170789 TGA
1 TGA
10170792 CATGGAAATG
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
61 7 0.12
62 47 0.82
63 3 0.05
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.28
Consensus pattern (61 bp):
TGAAAATGGAGAATGGAACATTTGGAAATGAATATGATTTTCCCCAAAATGAAAATGAAAA
Found at i:10170930 original size:25 final size:25
Alignment explanation
Indices: 10170902--10170955 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
10170892 TTTTCTCATG
10170902 GATTCTTTTACGATAAAGTCATTAT
1 GATTCTTTTACGATAAAGTCATTAT
* **
10170927 GATTCTTTTACGGTAAAGTTGTTAT
1 GATTCTTTTACGATAAAGTCATTAT
10170952 GATT
1 GATT
10170956 TTAACAGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (25 bp):
GATTCTTTTACGATAAAGTCATTAT
Found at i:10171648 original size:10 final size:9
Alignment explanation
Indices: 10171609--10171647 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
10171599 GCTTAGTGTT
10171609 AATTAATTA
1 AATTAATTA
10171618 AATTTAATTA
1 AA-TTAATTA
*
10171628 AACTAATTA
1 AATTAATTA
10171637 AGATTAATTA
1 A-ATTAATTA
10171647 A
1 A
10171648 GTATTAAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (9 bp):
AATTAATTA
Found at i:10172022 original size:32 final size:32
Alignment explanation
Indices: 10171985--10172048 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
10171975 AGTTTTTTAA
10171985 CATAGAGACTAAAGTGTATAAATTCCAAAATT
1 CATAGAGACTAAAGTGTATAAATTCCAAAATT
10172017 CATAGAGACTAAAGTGTATAAATTCCAAAATT
1 CATAGAGACTAAAGTGTATAAATTCCAAAATT
10172049 GATAAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (32 bp):
CATAGAGACTAAAGTGTATAAATTCCAAAATT
Found at i:10176955 original size:99 final size:99
Alignment explanation
Indices: 10176784--10176981 Score: 378
Period size: 99 Copynumber: 2.0 Consensus size: 99
10176774 TAGTAGAGGC
10176784 CGGAAGGTAATACTAGTTAATTAATAGCTAATTTCATTTCAACCTAAATTTTGAAGTTAATTATA
1 CGGAAGGTAATACTAGTTAATTAATAGCTAATTTCATTTCAACCTAAATTTTGAAGTTAATTATA
*
10176849 ATGAGTTAATATTATGATTTAGTTGTTTGTCAAT
66 ACGAGTTAATATTATGATTTAGTTGTTTGTCAAT
*
10176883 CGGAAGGTAATACTAGTTAATTAATAGCTAATTTCATTTCAACCTGAATTTTGAAGTTAATTATA
1 CGGAAGGTAATACTAGTTAATTAATAGCTAATTTCATTTCAACCTAAATTTTGAAGTTAATTATA
10176948 ACGAGTTAATATTATGATTTAGTTGTTTGTCAAT
66 ACGAGTTAATATTATGATTTAGTTGTTTGTCAAT
10176982 TTTCTATTTA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.42
Consensus pattern (99 bp):
CGGAAGGTAATACTAGTTAATTAATAGCTAATTTCATTTCAACCTAAATTTTGAAGTTAATTATA
ACGAGTTAATATTATGATTTAGTTGTTTGTCAAT
Found at i:10176983 original size:50 final size:50
Alignment explanation
Indices: 10176830--10176984 Score: 113
Period size: 50 Copynumber: 3.1 Consensus size: 50
10176820 TTTCAACCTA
*
10176830 AATTTTGAAGTTAATTATAATGAGTTAATATTATGATTTAGTTGTTTGTC
1 AATTTTGAAGTTAATTATAACGAGTTAATATTATGATTTAGTTGTTTGTC
** * * * * * ***** *
10176880 AA-TCGGAAGGT-A--AT-ACTAGTTAATTAATAGCTAATTTCATTTCAACCTG
1 AATTTTGAAGTTAATTATAACGAGTTAA-TATTA--TGATTT-AGTTGTTTGTC
10176929 AATTTTGAAGTTAATTATAACGAGTTAATATTATGATTTAGTTGTTTGTC
1 AATTTTGAAGTTAATTATAACGAGTTAATATTATGATTTAGTTGTTTGTC
10176979 AATTTT
1 AATTTT
10176985 CTATTTATTC
Statistics
Matches: 69, Mismatches: 27, Indels: 18
0.61 0.24 0.16
Matches are distributed among these distances:
45 7 0.10
46 6 0.09
48 6 0.09
49 12 0.17
50 18 0.26
51 6 0.09
53 6 0.09
54 8 0.12
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (50 bp):
AATTTTGAAGTTAATTATAACGAGTTAATATTATGATTTAGTTGTTTGTC
Found at i:10182639 original size:112 final size:112
Alignment explanation
Indices: 10182383--10182624 Score: 484
Period size: 112 Copynumber: 2.2 Consensus size: 112
10182373 GATAAAATAT
10182383 ATTCGATTCGATTCGATTCGAATTCCATCTCACTCGACTCGATTCAAAAAAATTTCAAATCGTTA
1 ATTCGATTCGATTCGATTCGAATTCCATCTCACTCGACTCGATTCAAAAAAATTTCAAATCGTTA
10182448 GGATGATAAAATATGATTCTTCAACTCGATTAACTCGAAATTTTTTC
66 GGATGATAAAATATGATTCTTCAACTCGATTAACTCGAAATTTTTTC
10182495 ATTCGATTCGATTCGATTCGAATTCCATCTCACTCGACTCGATTCAAAAAAATTTCAAATCGTTA
1 ATTCGATTCGATTCGATTCGAATTCCATCTCACTCGACTCGATTCAAAAAAATTTCAAATCGTTA
10182560 GGATGATAAAATATGATTCTTCAACTCGATTAACTCGAAATTTTTTC
66 GGATGATAAAATATGATTCTTCAACTCGATTAACTCGAAATTTTTTC
10182607 ATTCGATTCGATTCGATT
1 ATTCGATTCGATTCGATT
10182625 AGATTGAACG
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 130 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (112 bp):
ATTCGATTCGATTCGATTCGAATTCCATCTCACTCGACTCGATTCAAAAAAATTTCAAATCGTTA
GGATGATAAAATATGATTCTTCAACTCGATTAACTCGAAATTTTTTC
Found at i:10201850 original size:20 final size:21
Alignment explanation
Indices: 10201822--10201864 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
10201812 TACTGTTACT
10201822 ATCAAAAAGT-ATTATTTTAG
1 ATCAAAAAGTGATTATTTTAG
* *
10201842 ATCATAAAGTGTTTATTTTAG
1 ATCAAAAAGTGATTATTTTAG
10201863 AT
1 AT
10201865 ATTATATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (21 bp):
ATCAAAAAGTGATTATTTTAG
Found at i:10203385 original size:29 final size:30
Alignment explanation
Indices: 10203339--10203406 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
10203329 TAATTAAAAA
*
10203339 CAATTAAGCTCCTAATTGAAAACT-GCAAT
1 CAATTGAGCTCCTAATTGAAAACTAGCAAT
* * **
10203368 CAATTGAGCTCTTGATTGAAAGTTAGCAAT
1 CAATTGAGCTCCTAATTGAAAACTAGCAAT
*
10203398 TAATTGAGC
1 CAATTGAGC
10203407 CCCAAAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 19 0.59
30 13 0.41
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (30 bp):
CAATTGAGCTCCTAATTGAAAACTAGCAAT
Found at i:10203594 original size:30 final size:31
Alignment explanation
Indices: 10203542--10203599 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
10203532 TGTCGATACA
*
10203542 GAGGGCTTAATTGACTTTTTAATTATTTTAT
1 GAGGGCTTAATTGACATTTTAATTATTTTAT
*
10203573 GAGGGCTTAATTTA-ATTTTAATTATTT
1 GAGGGCTTAATTGACATTTTAATTATTT
10203600 AAGCCTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.28, C:0.05, G:0.16, T:0.52
Consensus pattern (31 bp):
GAGGGCTTAATTGACATTTTAATTATTTTAT
Found at i:10203656 original size:8 final size:9
Alignment explanation
Indices: 10203605--10203674 Score: 54
Period size: 9 Copynumber: 7.4 Consensus size: 9
10203595 TATTTAAGCC
10203605 TAAAAA-TA
1 TAAAAATTA
10203613 TTAAAATATTA
1 -TAAAA-ATTA
10203624 TAACAAATCTA
1 TAA-AAAT-TA
*
10203635 -GAAAATTA
1 TAAAAATTA
10203643 TAAAAATTA
1 TAAAAATTA
*
10203652 TAAAAAACTA
1 T-AAAAATTA
*
10203662 TAAATATTA
1 TAAAAATTA
10203671 TAAA
1 TAAA
10203675 TTANNNNNNN
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
8 2 0.04
9 27 0.54
10 15 0.30
11 6 0.12
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:10203658 original size:19 final size:18
Alignment explanation
Indices: 10203605--10203665 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
10203595 TATTTAAGCC
*
10203605 TAAAAATATTAAAATATTA
1 TAAAAATA-TAAAAAATTA
* *
10203624 TAACAAATCTAGAAAATTA
1 TAA-AAATATAAAAAATTA
*
10203643 TAAAAATTATAAAAAACTA
1 TAAAAA-TATAAAAAATTA
10203662 TAAA
1 TAAA
10203666 TATTATAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 3 0.09
19 27 0.79
20 4 0.12
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (18 bp):
TAAAAATATAAAAAATTA
Found at i:10203670 original size:19 final size:19
Alignment explanation
Indices: 10203636--10203674 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
10203626 ACAAATCTAG
*
10203636 AAAATTATAAAAATTATAA
1 AAAACTATAAAAATTATAA
*
10203655 AAAACTATAAATATTATAA
1 AAAACTATAAAAATTATAA
10203674 A
1 A
10203675 TTANNNNNNN
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAACTATAAAAATTATAA
Found at i:10203977 original size:8 final size:8
Alignment explanation
Indices: 10203966--10203991 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
10203956 AAAAAATTAC
10203966 TAAAATAT
1 TAAAATAT
10203974 TAAAATAT
1 TAAAATAT
10203982 TAAAATAT
1 TAAAATAT
10203990 TA
1 TA
10203992 TAAAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAAAATAT
Found at i:10204086 original size:12 final size:12
Alignment explanation
Indices: 10204065--10204108 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
10204055 ATAGATTTTG
10204065 TTAC-GAGTATC
1 TTACTGAGTATC
10204076 TTACTGAGTATC
1 TTACTGAGTATC
*
10204088 TTATTGAGTATC
1 TTACTGAGTATC
*
10204100 TTATTGAGT
1 TTACTGAGT
10204109 GGATGTCCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 4 0.13
12 27 0.87
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.45
Consensus pattern (12 bp):
TTACTGAGTATC
Found at i:10204644 original size:24 final size:24
Alignment explanation
Indices: 10204617--10204662 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
10204607 TAAAATTTTT
10204617 TATGATT-AAATTATTGTTATTAAA
1 TATGATTGAAATTATTG-TATTAAA
*
10204641 TATGCTTGAAATTATTGTATTA
1 TATGATTGAAATTATTGTATTA
10204663 TATCTTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.50
Consensus pattern (24 bp):
TATGATTGAAATTATTGTATTAAA
Found at i:10210230 original size:27 final size:27
Alignment explanation
Indices: 10210171--10210242 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
10210161 CCCAAACTGG
10210171 TATAAAATGACTTATATGCCCCCATGT
1 TATAAAATGACTTATATGCCCCCATGT
** * *
10210198 GGTAAAATGACTGT-TATTCCCCTATGT
1 TATAAAATGACT-TATATGCCCCCATGT
*
10210225 TATAAAACGAC-TATATGC
1 TATAAAATGACTTATATGC
10210243 TCTATGTTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
25 1 0.03
26 4 0.11
27 29 0.83
28 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (27 bp):
TATAAAATGACTTATATGCCCCCATGT
Found at i:10214437 original size:128 final size:128
Alignment explanation
Indices: 10214239--10214513 Score: 489
Period size: 128 Copynumber: 2.1 Consensus size: 128
10214229 ATTACAACTT
* *
10214239 CAGGGAGATAGGA-TTATCGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTT
1 CAGGGACATAGGACTTGT-GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTT
10214303 CAATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
65 CAATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
* *
10214367 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTT
1 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTC
*
10214432 GATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
66 AATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
10214495 CAGGGACATAGGACTTGTG
1 CAGGGACATAGGACTTGTG
10214514 ATTTCATTGA
Statistics
Matches: 141, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
128 138 0.98
129 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.29
Consensus pattern (128 bp):
CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTC
AATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
Found at i:10215756 original size:7 final size:7
Alignment explanation
Indices: 10215744--10215784 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
10215734 AGCCTCTCTA
10215744 TTTTCAT
1 TTTTCAT
10215751 TTTTCAT
1 TTTTCAT
10215758 TTTTCA-
1 TTTTCAT
10215764 TTTTCATT
1 TTTTCA-T
10215772 TTTTCAT
1 TTTTCAT
10215779 TTTTCA
1 TTTTCA
10215785 CACATTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.19
7 20 0.62
8 6 0.19
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:10215776 original size:21 final size:20
Alignment explanation
Indices: 10215743--10215784 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 20
10215733 TAGCCTCTCT
10215743 ATTTTCATTTTTCATTTTTC
1 ATTTTCATTTTTCATTTTTC
10215763 ATTTTCATTTTTTCATTTTTC
1 ATTTTCA-TTTTTCATTTTTC
10215784 A
1 A
10215785 CACATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTCATTTTTCATTTTTC
Found at i:10221586 original size:13 final size:15
Alignment explanation
Indices: 10221560--10221590 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10221550 TTAAATATTA
10221560 AAATATATTATAAAT
1 AAATATATTATAAAT
10221575 AAATATATTA-AAAT
1 AAATATATTATAAAT
10221589 AA
1 AA
10221591 GTACTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATATATTATAAAT
Found at i:10223250 original size:16 final size:17
Alignment explanation
Indices: 10223215--10223252 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
10223205 AAATACGCTC
10223215 TCTCTTTGCTCTCATAT
1 TCTCTTTGCTCTCATAT
* *
10223232 TCTCTTTGTTCT-TTAT
1 TCTCTTTGCTCTCATAT
10223248 TCTCT
1 TCTCT
10223253 GTCTTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.08, C:0.26, G:0.05, T:0.61
Consensus pattern (17 bp):
TCTCTTTGCTCTCATAT
Found at i:10223725 original size:4 final size:4
Alignment explanation
Indices: 10223716--10223772 Score: 89
Period size: 4 Copynumber: 14.0 Consensus size: 4
10223706 AGAGGAATAA
10223716 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAAT AAA- AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT
10223764 AAAAT AAAT
1 -AAAT AAAT
10223773 CGGTAAACCA
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
3 3 0.06
4 39 0.78
5 8 0.16
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:10223871 original size:4 final size:4
Alignment explanation
Indices: 10223862--10223912 Score: 86
Period size: 4 Copynumber: 12.8 Consensus size: 4
10223852 AGAGGAATAA
10223862 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAAT AAA- AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT
10223910 AAA
1 AAA
10223913 GATTTTATGT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.07
4 38 0.84
5 4 0.09
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:10228982 original size:51 final size:50
Alignment explanation
Indices: 10228862--10229046 Score: 185
Period size: 51 Copynumber: 3.7 Consensus size: 50
10228852 AGTTGCTTGG
* * *
10228862 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACTAGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAATGATAGA
* * * * *
10228912 TCACATGTGTAGTACTATGTGAAGGCTACTATGCGTACC-GGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAAT-G-ATAGA
* * * * *
10228963 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAG-ATGAAAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAATG-ATA-GA
* *
10229014 TCACATGTGTAGTACTATGTGCATGCTACTATG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATG
10229047 TGAACCGGGT
Statistics
Matches: 110, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
49 3 0.03
50 37 0.34
51 69 0.63
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAATGATAGA
Found at i:10232195 original size:99 final size:97
Alignment explanation
Indices: 10232060--10232258 Score: 380
Period size: 99 Copynumber: 2.0 Consensus size: 97
10232050 TTGCACATTG
10232060 GAAAAATTATTTTTTTCTAAAATCGAGCAGTTGTGTGATATTTATAGCAATAAACTATTTATCAA
1 GAAAAATTATTTTTTTCTAAAATCGAGCAGTTGTGTGATATTTATAGCAATAAACTATTTATCAA
10232125 AATTGTTTCTTTGTTTTGGAATAGGCTGTAAA
66 AATTGTTTCTTTGTTTTGGAATAGGCTGTAAA
10232157 GAAAAATTATTTTTTTTTCTAAAATCGAGCAGTTGTGTGATATTTATAGCAATAAACTATTTATC
1 GAAAAATTA--TTTTTTTCTAAAATCGAGCAGTTGTGTGATATTTATAGCAATAAACTATTTATC
10232222 AAAATTGTTTCTTTGTTTTGGAATAGGCTGTAAA
64 AAAATTGTTTCTTTGTTTTGGAATAGGCTGTAAA
10232256 GAA
1 GAA
10232259 TGTTTTTCGT
Statistics
Matches: 100, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
97 9 0.09
99 91 0.91
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (97 bp):
GAAAAATTATTTTTTTCTAAAATCGAGCAGTTGTGTGATATTTATAGCAATAAACTATTTATCAA
AATTGTTTCTTTGTTTTGGAATAGGCTGTAAA
Found at i:10232808 original size:14 final size:14
Alignment explanation
Indices: 10232789--10232821 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
10232779 AATGTTATTT
10232789 ATTTTAATTAAATA
1 ATTTTAATTAAATA
*
10232803 ATTTTAATTAAATT
1 ATTTTAATTAAATA
10232817 ATTTT
1 ATTTT
10232822 CTCAACCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTTAATTAAATA
Found at i:10233632 original size:21 final size:21
Alignment explanation
Indices: 10233602--10233647 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
10233592 TTAAACCTAA
* *
10233602 TTAATTAAGT-TAATAAAATAC
1 TTAATCAAGTATAA-AAAAAAC
10233623 TTAATCAAGTATAAAAAAAAC
1 TTAATCAAGTATAAAAAAAAC
10233644 TTAA
1 TTAA
10233648 GTGGAATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (21 bp):
TTAATCAAGTATAAAAAAAAC
Found at i:10248182 original size:17 final size:18
Alignment explanation
Indices: 10248154--10248187 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10248144 TCAAGCTATA
*
10248154 AATTAGACATAATATAAC
1 AATTAGACATAAAATAAC
10248172 AATTA-ACATAAAATAA
1 AATTAGACATAAAATAA
10248188 AATACCCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.09, G:0.03, T:0.26
Consensus pattern (18 bp):
AATTAGACATAAAATAAC
Found at i:10248712 original size:17 final size:17
Alignment explanation
Indices: 10248690--10248725 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
10248680 CAATATAGGA
*
10248690 TTCGCACATCATATGAG
1 TTCGCACATCAAATGAG
10248707 TTCGCACATCAAATGAG
1 TTCGCACATCAAATGAG
10248724 TT
1 TT
10248726 TACACAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (17 bp):
TTCGCACATCAAATGAG
Found at i:10248885 original size:21 final size:20
Alignment explanation
Indices: 10248839--10248887 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
10248829 ATCATAATAT
10248839 AGGGTTCGCACATGATATAAC
1 AGGGTTCGCACA-GATATAAC
*
10248860 TGGGTTCGCACA-ATATGCAAC
1 AGGGTTCGCACAGATAT--AAC
10248881 AGGGTTC
1 AGGGTTC
10248888 ACAGATCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 4 0.17
21 20 0.83
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (20 bp):
AGGGTTCGCACAGATATAAC
Found at i:10250009 original size:21 final size:21
Alignment explanation
Indices: 10249967--10250009 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10249957 ATAAATCCCA
*
10249967 TTTCAATTAAAACTCTTTATT
1 TTTCAATTAAAACTCTTAATT
*
10249988 TTTCACATTTAAACTC-TAATT
1 TTTCA-ATTAAAACTCTTAATT
10250009 T
1 T
10250010 AAAATTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTCAATTAAAACTCTTAATT
Found at i:10257553 original size:17 final size:17
Alignment explanation
Indices: 10257515--10257556 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
10257505 ATTAGGTAAT
*
10257515 TTAAGTTTAATAATTCAC
1 TTAA-TTTAATAAATCAC
10257533 TTAATTTAATAAATCTA-
1 TTAATTTAATAAATC-AC
10257550 TTAATTT
1 TTAATTT
10257557 GGACTAACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.50
Consensus pattern (17 bp):
TTAATTTAATAAATCAC
Found at i:10262806 original size:18 final size:18
Alignment explanation
Indices: 10262779--10262819 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
10262769 ACTACCTGAG
*
10262779 GTTTTGTGTTCTAACTTT
1 GTTTTATGTTCTAACTTT
10262797 GTTTTATGTTCTAACTTT
1 GTTTTATGTTCTAACTTT
10262815 GTTTT
1 GTTTT
10262820 CATCAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.10, G:0.15, T:0.63
Consensus pattern (18 bp):
GTTTTATGTTCTAACTTT
Found at i:10264706 original size:17 final size:16
Alignment explanation
Indices: 10264680--10264711 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
10264670 CTAATCTATT
10264680 TAAATGTAAATACTTG
1 TAAATGTAAATACTTG
10264696 TAAATTGTAAATACTT
1 TAAA-TGTAAATACTT
10264712 CGATCCAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (16 bp):
TAAATGTAAATACTTG
Found at i:10266334 original size:17 final size:17
Alignment explanation
Indices: 10266295--10266328 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10266285 CTACTTGGGT
10266295 CATGTGGACCACACGGG
1 CATGTGGACCACACGGG
*
10266312 CATGTGGGCCACACGGG
1 CATGTGGACCACACGGG
10266329 TGTGTGTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.29, G:0.38, T:0.12
Consensus pattern (17 bp):
CATGTGGACCACACGGG
Found at i:10274392 original size:16 final size:16
Alignment explanation
Indices: 10274337--10274394 Score: 89
Period size: 16 Copynumber: 3.6 Consensus size: 16
10274327 TTTGGTTCGC
* *
10274337 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
10274353 TGTAATGAAATAGAGG
1 TGTAATGGAATAGAGG
10274369 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
10274385 TGTAATGGAA
1 TGTAATGGAA
10274395 AAGCTGTGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.36, C:0.00, G:0.34, T:0.29
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:10274660 original size:18 final size:17
Alignment explanation
Indices: 10274639--10274673 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10274629 TTATTATTAA
*
10274639 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10274657 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10274674 TCTNNNNNNN
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10276832 original size:27 final size:27
Alignment explanation
Indices: 10276770--10276822 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
10276760 ATCAATAACT
*
10276770 GAAATACCCTCATAAGGTAACATGACC
1 GAAATACCCTCATAAGGTAAAATGACC
*
10276797 GAAATACCCTCATAGGGTAAAATGAC
1 GAAATACCCTCATAAGGTAAAATGAC
10276823 TATTATACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.19
Consensus pattern (27 bp):
GAAATACCCTCATAAGGTAAAATGACC
Found at i:10277015 original size:26 final size:26
Alignment explanation
Indices: 10276985--10277039 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
10276975 TGGAGGAAGT
*
10276985 ATACTATTACTGGTAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
10277011 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
10277037 ATA
1 ATA
10277040 TTAGTGTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:10279422 original size:17 final size:17
Alignment explanation
Indices: 10279336--10279412 Score: 70
Period size: 17 Copynumber: 4.6 Consensus size: 17
10279326 ATTTTTTGTA
10279336 ATTAATTTAATAAATCT
1 ATTAATTTAATAAATCT
* *
10279353 ATTAATTTAAT-TA-GT
1 ATTAATTTAATAAATCT
* * *
10279368 -TTAGGTTTAATAATTCA
1 ATTA-ATTTAATAAATCT
*
10279385 ATTAGTTTAATAAATCT
1 ATTAATTTAATAAATCT
10279402 ATTAATTTAAT
1 ATTAATTTAAT
10279413 TAGTCCATTA
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
14 3 0.07
15 7 0.15
16 1 0.02
17 32 0.70
18 3 0.07
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (17 bp):
ATTAATTTAATAAATCT
Found at i:10280734 original size:22 final size:21
Alignment explanation
Indices: 10280692--10280731 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10280682 CAATTTAAGA
10280692 AAAAAGCATTGATACCTTTAC
1 AAAAAGCATTGATACCTTTAC
*
10280713 AAAAAGTATTGATACCTTT
1 AAAAAGCATTGATACCTTT
10280732 TACCAAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (21 bp):
AAAAAGCATTGATACCTTTAC
Found at i:10281321 original size:68 final size:68
Alignment explanation
Indices: 10281240--10281367 Score: 220
Period size: 68 Copynumber: 1.9 Consensus size: 68
10281230 AAATCACGGC
*
10281240 CCAATACATTAGGGTACAATTTCCTAAAATCCCAAACATTCAATATTTCCTTTATCATTTATCGC
1 CCAATACATTAGGGCACAATTTCCTAAAATCCCAAACATTCAATATTTCCTTTATCATTTATCGC
10281305 GGT
66 GGT
* **
10281308 CCAATACGTTAGGGCACGGTTTCCTAAAATCCCAAACATTCAATATTTCCTTTATCATTT
1 CCAATACATTAGGGCACAATTTCCTAAAATCCCAAACATTCAATATTTCCTTTATCATTT
10281368 TTTTAAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 56 1.00
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.35
Consensus pattern (68 bp):
CCAATACATTAGGGCACAATTTCCTAAAATCCCAAACATTCAATATTTCCTTTATCATTTATCGC
GGT
Found at i:10292173 original size:27 final size:27
Alignment explanation
Indices: 10292135--10292186 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
10292125 TAGGGTTGCT
10292135 AATGAAAAACATGTTGCTAATGAAATA
1 AATGAAAAACATGTTGCTAATGAAATA
*
10292162 AATGTAAAACATGTTGCTAATGAAA
1 AATGAAAAACATGTTGCTAATGAAA
10292187 GAATGTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (27 bp):
AATGAAAAACATGTTGCTAATGAAATA
Found at i:10292739 original size:41 final size:41
Alignment explanation
Indices: 10292666--10292832 Score: 203
Period size: 41 Copynumber: 4.1 Consensus size: 41
10292656 AAAAACACCT
* * * *
10292666 CAAAAGGT-AGGCAATAGCAGTGTTTCTCCCATAAACGCCG
1 CAAAAGGTAAGGCAACAGCAGCGTTTTTACCATAAACGCCG
*
10292706 CAAAAGGTAAGGCAACAGCGGCGTTTTTACCATAAACGCCG
1 CAAAAGGTAAGGCAACAGCAGCGTTTTTACCATAAACGCCG
* * * *
10292747 CAAAAGGTTAGGC-ACTAGCGGCATTTTTACCATAAACGCCA
1 CAAAAGGTAAGGCAAC-AGCAGCGTTTTTACCATAAACGCCG
* * *
10292788 CAAAAGGTAAGGCAATAGCAGCGTTTTTACAATAAACGCAG
1 CAAAAGGTAAGGCAACAGCAGCGTTTTTACCATAAACGCCG
10292829 CAAA
1 CAAA
10292833 TTTTTAAATT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
40 10 0.09
41 98 0.90
42 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.19
Consensus pattern (41 bp):
CAAAAGGTAAGGCAACAGCAGCGTTTTTACCATAAACGCCG
Found at i:10304532 original size:17 final size:17
Alignment explanation
Indices: 10304510--10304556 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
10304500 ATAAGAATAT
10304510 ATTGTCATTGCATTTTC
1 ATTGTCATTGCATTTTC
* *
10304527 ATTGTCATTACATATTC
1 ATTGTCATTGCATTTTC
*
10304544 -TTGTCAGTGCATT
1 ATTGTCATTGCATT
10304557 GGGGACATTG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (17 bp):
ATTGTCATTGCATTTTC
Found at i:10320116 original size:31 final size:30
Alignment explanation
Indices: 10320059--10320117 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
10320049 TTATTTTAAA
***
10320059 TGTTAGTTTATTTTTTATATTTTAAATTAT
1 TGTTAGTTTATTTTTTATACGATAAATTAT
*
10320089 TGTTAGTTTGATTTTTTTTACGATAAATT
1 TGTTAGTTT-ATTTTTTATACGATAAATT
10320118 CATTAATTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (30 bp):
TGTTAGTTTATTTTTTATACGATAAATTAT
Done.